Rxivist logo

Integrative analysis of multi-omics layers at single cell level is critical for accurate dissection of cell-to-cell variation within certain cell populations. Here we report scCAT-seq, a technique for simultaneously assaying chromatin accessibility and the transcriptome within the same single cell. By applying our integrated approach to multiple cancer cell lines, we discovered genomic loci with coordinated epigenomic and transcriptomic variability. In addition, decomposition of combined single-cell chromatin accessibility and gene expression features by a non-negative matrix factorization (NMF) based method identified signatures reflecting cell type specificity and revealed a profound regulatory relationship between the two layers of omics. We further characterized subpopulations associated with distinct regulatory patterns within patient-derived xenograft models and discovered epigenomic and transcriptomic clues that drive tumor heterogeneity. The ability to obtain these two layers of omics data will help provide more accurate definitions of "single cell states" and enable the deconvolution of regulatory heterogeneity from complex cell populations.

Download data

  • Downloaded 2,416 times
  • Download rankings, all-time:
    • Site-wide: 2,642 out of 88,995
    • In genomics: 500 out of 5,673
  • Year to date:
    • Site-wide: 30,453 out of 88,995
  • Since beginning of last month:
    • Site-wide: 25,576 out of 88,995

Altmetric data

Downloads over time

Distribution of downloads per paper, site-wide


Sign up for the Rxivist weekly newsletter! (Click here for more details.)